Status
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Gene information
General information
TC007094 Gene

The sequence from the iB fragment is matched against the genes from the official gene set. The matche(s) is/are visualizied in a genome browser.

NC_007419.2: 9628012..9629993
Sequence information
Transcripts / Proteins (1) Get mRNA sequence
Get CDS sequence
Get protein sequence
Ortholog information (from OrthoDB)

The information about the homolog genes in Drosophila is provided by OrthoDB http://www.orthodb.org/. The homologs are sorted according to their similarity score. For an orthology statement additional analysis are required.
The data basis for the orthologs is OrthoDB v9 containing OGS3 for Tribolium castaneum and 2015_04 (r6.07) for Drosophila melanogaster.

Closest fly homologs
    		TC007094
    Gene ontology

    GO terms for Tribolium

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    There are no GO terms for Tribolium at the moment. You can help the community by providing some GO terms for this gene.


    GO terms for the homologous Drosophila genes

    Assign a GO term to this Tribolium gene by filling in the fields. Repeat to add several GO terms. Search AmiGO for the correct GO ID. Use only the most specific term - use "graph views" to browse related terms ("child terms" are more specific; the more general "parent" terms will be automatically linked). Only information based on Tribolium data should be entered - do not define terms just based on Drosophila knowledge. We will review this information and submit the annotation to the Gene Ontology consortium.


    Gene
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    The Tribolium gene the GO term is assigned to.
    GO ID *
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    The ID of the GO term you assign to the gene. Please enter only the ID of the GO term with proceeding 'GO:'. This information is mandatory.
    Evidence
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    The evidence code describes with which method the function or location, expressed by the GO term, was show for this gene. Please refer to this page for a definition of the evidence code and a decision tree.
    Reference *
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    The reference where the function or location is described for the gene. Please enter a PubMed ID. This information is mandatory.
    Quotation
    If you paste here the relevant section of the reference it is for us a great help to review your annotation. The quotation may be also be displayed to the users of iBeetle-Base.
    Name
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    Email
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_07241

    Attention! iBeetle is a first pass screen. Hence, the documented phenotypes need to be confirmed by independent experiments using non-overlapping dsRNA fragments! Phenotypes with a penetrance > 50% are frequently reproduced. See Schmitt-Engel et al. 2015 for details on reproducibility.

    iB sequence
    Phenotype after pupal injection
    Usually 10 injected animals

    Pupal injection procedure

    Day 0: 10 female pupae of the pBA19 strain (muscle enhancer trap line) were injected with dsRNA.

    3 days post injection (dpi): Hatch control: Pupal and adult lethality as well as metamorphosis defects (molting, eclosion) were documented. For mating, 4 males of the black strain were added.

    9 dpi: First egg-lay was collected and incubated for cuticle analysis. Adult lethality and egg production (reduced/ no egg-lay) was documented.

    11 dpi: Second egg-lay was collected and incubated for embryonic muscle analysis. Adult lethality and egg production (reduced/ no egg-lay) were documented.

    Note: The adult morphology was not analyzed systematically at 3/9/11 dpi. Only obvious phenotypes, visible without magnification, have been annotated.

    13 dpi: Egg productivity and Ovary analysis
    The percentage of hatched larvae was documented and not hatched larvae/ eggs were embedded for cuticle analysis (15 dpi). In case of a reduction of egg production, 4 injected females were dissected to analyze the gross morphology of the ovaries.

    14 dpi: Analysis of embryonic musculature and early embryonic development
    Offspring of the injected females (hatched and not hatched larvae/ eggs) were analysed for embryonic lethality and muscle defects.

    15 dpi: Analysis of larval instar 1 cuticle
    Offspring of injected females were analysed and cuticle phenotypes were annotated.

    22 dpi: Stink gland analysis
    Documentation of defects in abdominal and thoracic stink glands (colour, size, content) of the injected femals.

    Terms used in the pupal injection procedure

    larval pantagmatic defects
    At least two tagmata (head, thorax, abdomen or terminus) show similar/ comparable defects.
    empty eggs
    Just empty shells are visible, no cuticle has been developed.
    strong defects
    L1 cuticle larvae which show severe defects. These strong defects are subdivided into three categories
    strongly fragmented (cuticle crumbs)
    No segments or appendages are identifiable, only residues of cuticle and bristles can be identified.
    cuticle remnants (with unidentifiable segments)
    Segments or parts of appendages are recognizable, but identity is not clear.
    cuticle remnants (with some identifiable segments)
    At least one segment or appendage is clearly regonizable.
    number of eggs on slide
    affected embryos usually (not always) do not hatch. Only the not hatched were used for cuticle analysis.
    For the embryonic muscle analysis the hatched as well as the not hatched were analysed.
    total number of affected eggs/embryos/larvae
    Summary of all different phenotypes/ phenotypic series which were annotated.
    inside-out
    The L1 larva shows a partial or complete inversion., e.g. bristles, appendages or parts of the abdominal segments are inverted into the interior of the cuticle.
    starved
    Dissected females show a strong resorption of fatbody predominately in the abdomen and the oogenesis is blocked. These are considered as eventually lethal phenotypes and the blocked oogenesis probably a secondary defect due to starvation.
    eclosion not fulfilled
    The emergence of the adult from the pupa stage is interrupted. This phenotype shows pupal as well as adult features.
    Please see the help page for more information
    Metamorphosis and survival

    Lethality 11 days after pupal injection: 40.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 3 (3 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    labium sometimes not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    head fused - Penetrance (percentage of animals/eggs on slide): less than 30%

    thorax symmetry irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    legs partially not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    thorax partially unilateralfused - Penetrance (percentage of animals/eggs on slide): less than 30%
    thorax fused - Penetrance (percentage of animals/eggs on slide): less than 30%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    Phenotype after larval injection
    Usually 10 injected animals

    Larval injection procedure

    Day 0: 10 female L5-6 larvae of the D17Xhom strain (females express RFP in the eyes and in the CNS; pupae express GFP in the thorax) were injected with dsRNA.

    11 days post injection (dpi): Pupal morphology Documentation of larval/ pupal death and defects of metamorphosis (eclosion, delayed development). Screening for alterations of pupal head and appendages, pupal thorax, pupal thoracic musculature, pupal legs, pupal wings, pupal abdomen and pupal genital lobes.

    16 dpi: Adult morphology Documentation of larval/ pupal and adult death and defects of metamorphosis (eclosion, delayed development). Screening for alterations of adult head and appendages, adult thorax, adult elytra and hindwings, adult legs and cuticle properties. For mating 4 males of the black strain were added.

    19 dpi: Sieving and egg-lay Documentation of adult lethality and enduring metamorphosis defects.

    22 dpi: Ovary analysis (Fertility) In case of a reduction of egg production 4 females were dissected and the gross morphology of the ovaries were analysed.

    41 dpi: Fertility and stink gland analysis Documentation of defects in abdominal and thoracic stink glands development (colour, size, content) of the injected females. Check for fertility of injected larvae (no or decreased offspring).

    Terms used in the larval injection procedure

    pupal/ adult pantagmatic defects
    At least two tagmata (head, thorax, abdomen or terminus) show similar/ comparable defects.
    pupal molt not fulfilled
    The hatching from the larva to the pupa is interrupted. Either it dies as prepupa or the phenotype shows larval as well as pupal features.
    eclosion not fulfilled
    The emergence of the adult from the pupa stage is interrupted. This phenotype shows pupal as well as adult features.
    starved
    Dissected females show a strong resorption of fatbody predominately in the abdomen and the oogenesis is blocked. These are considered as eventually lethal phenotypes and the blocked oogenesis probably a secondary defect due to starvation.
    Metamorphosis and survival

    Lethalities 11 days after larval injection: % (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: % (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC007094 RA
      MEDIKTKSI HHTAIKICE DFKSSPSYQ ALFQDLQKL 
VSTPSVKYD DFKESLLKA MKDNGLDAG LRNNVYHWM 
KTKKKEVSS PYDAFFRKA QIHWDKRIH KSLNSMCAE 
LGINLAKAR TVAEREEIA SKWGELSNY EVDIHKYRP 
VYAPKDFLE VLLNLKGPT TRTKGCPKW EFAQMPLKV 
KNLTDLRCL YLELSRGEQ ILGINCSMM SPHYSTLES 
ERITLGEKV LAKNYAPMA QEFLKKGCP QCLRAKIWT 
LVLGADVKP YHYSYFESL KESVLQYDL MIDKLIIKD 
INLTASNDD QYFVFEDVL YQVMLCFSR DGEILKDLS 
TQPGFMQVV IKGKQNGAE NTIIFPPSG VIPFHGFTM 
YAAPFCYLY DDPIQLYFV FRTFYIRYF HRLHRVCGN 
PQGVVALCL QYEKMLQCF EPSLWHHFR KCQIHPVRV 
VIKWIMRAF SGHLPPEQL LNLWDLILA YDSLEIIPL 
LALVILVFR KENLLKVNT LQNIEAVLA DLSSISVIP 
LLQMALLKE
    CDS sequence
    • >TC007094 RA
      atggaagac atcaaaacc aaaagcatt caccacact 
gccataaaa atctgtgaa gacttcaaa tcgtctccc 
tcttatcag gccctcttc caggatcta cagaaatta 
gtgtccacc cccagtgta aaatatgac gatttcaag 
gaaagtcta ctcaaggcc atgaaagat aacggcctg 
gacgccggt ttgcgaaac aatgtgtat cattggatg 
aaaacaaag aagaaagaa gtgtcttcg ccttacgac 
gcgtttttc cgaaaagca caaattcac tgggataaa 
agaatccac aaatcactg aactcgatg tgtgccgaa 
cttgggatc aaccttgcg aaggcgcga actgtggca 
gaaagggag gaaattgcg agtaaatgg ggcgaactt 
agcaattat gaggtcgac attcataaa tacagaccg 
gtgtatgcg ccgaaagac tttctggaa gttttgcta 
aacctcaaa ggaccaaca acgaggact aaaggttgt 
ccgaaatgg gaatttgcg caaatgcct ctcaaagtc 
aagaattta acggacttg agatgtctc tacttggag 
ctttcaaga ggcgagcaa atcttgggc atcaactgc 
tcaatgatg tctccacac tacagtacg ttagaaagc 
gaacgcata acacttggt gaaaaagtc ttagctaag 
aattacgcc cccatggcg caagaattc ctgaaaaag 
ggctgcccc cagtgcttg agggccaaa atctggact 
ttagtttta ggagccgat gttaaacct taccattat 
tcatacttc gagtcgctg aaagaaagc gtcctccag 
tacgactta atgatcgat aaactgatc atcaaagac 
atcaacctg acggcatca aacgacgat caatatttc 
gtgtttgag gatgttttg taccaggtg atgttgtgt 
ttttcgcgc gatggagaa atcctgaaa gacctctcc 
actcaaccc ggattcatg caagtcgtg atcaaaggc 
aaacagaac ggtgctgaa aacacgatt attttccca 
ccaagtggc gtaatccca tttcacggc ttcacaatg 
tacgctgcc cctttttgt tacttgtac gacgacccg 
atccaactg tatttcgtg tttcgcact ttttacatt 
cgttacttc caccgtttg catcgcgtg tgtggaaat 
ccgcaagga gtggttgcg ttgtgtctt cagtatgag 
aaaatgttg cagtgtttt gagcccagt ctttggcac 
cactttcga aaatgtcaa attcatccc gttcgagtg 
gtaattaag tggataatg cgcgcgttc agtggacat 
ctaccacct gaacagttg ttgaattta tgggatttg 
attctggcg tatgattcg ctcgagatt attccgctg 
ttggcgctt gtgattcta gtttttcgg aaagagaat 
ttgttgaaa gtgaatacg ttgcaaaat attgaagct 
gttttggcg gatttgtcg tcgatttct gttattccg 
ttgctgcaa atggcgctt ttgaaagaa tga
    mRNA sequence
    • >TC007094 RA
      agtgtttga taagacgtc gacaatgga agacatcaa 
aaccaaaag cattcacca cactgccat aaaaatctg 
tgaagactt caaatcgtc tccctctta tcaggccct 
cttccagga tctacagaa attagtgtc cacccccag 
tgtaaaata tgacgattt caaggaaag tctactcaa 
ggccatgaa agataacgg cctggacgc cggtttgcg 
aaacaatgt gtatcattg gatgaaaac aaagaagaa 
agaagtgtc ttcgcctta cgacgcgtt tttccgaaa 
agcacaaat tcactggga taaaagaat ccacaaatc 
actgaactc gatgtgtgc cgaacttgg gatcaacct 
tgcgaaggc gcgaactgt ggcagaaag ggaggaaat 
tgcgagtaa atggggcga acttagcaa ttatgaggt 
cgacattca taaatacag accggtgta tgcgccgaa 
agactttct ggaagtttt gctaaacct caaaggacc 
aacaacgag gactaaagg ttgtccgaa atgggaatt 
tgcgcaaat gcctctcaa agtcaagaa tttaacgga 
cttgagatg tctctactt ggagctttc aagaggcga 
gcaaatctt gggcatcaa ctgctcaat gatgtctcc 
acactacag tacgttaga aagcgaacg cataacact 
tggtgaaaa agtcttagc taagaatta cgcccccat 
ggcgcaaga attcctgaa aaagggctg cccccagtg 
cttgagggc caaaatctg gactttagt tttaggagc 
cgatgttaa accttacca ttattcata cttcgagtc 
gctgaaaga aagcgtcct ccagtacga cttaatgat 
cgataaact gatcatcaa agacatcaa cctgacggc 
atcaaacga cgatcaata tttcgtgtt tgaggatgt 
tttgtacca ggtgatgtt gtgtttttc gcgcgatgg 
agaaatcct gaaagacct ctccactca acccggatt 
catgcaagt cgtgatcaa aggcaaaca gaacggtgc 
tgaaaacac gattatttt cccaccaag tggcgtaat 
cccatttca cggcttcac aatgtacgc tgccccttt 
ttgttactt gtacgacga cccgatcca actgtattt 
cgtgtttcg cacttttta cattcgtta cttccaccg 
tttgcatcg cgtgtgtgg aaatccgca aggagtggt 
tgcgttgtg tcttcagta tgagaaaat gttgcagtg 
ttttgagcc cagtctttg gcaccactt tcgaaaatg 
tcaaattca tcccgttcg agtggtaat taagtggat 
aatgcgcgc gttcagtgg acatctacc acctgaaca 
gttgttgaa tttatggga tttgattct ggcgtatga 
ttcgctcga gattattcc gctgttggc gcttgtgat 
tctagtttt tcggaaaga gaatttgtt gaaagtgaa 
tacgttgca aaatattga agctgtttt ggcggattt 
gtcgtcgat ttctgttat tccgttgct gcaaatggc 
gcttttgaa agaatgagt tgttggaaa tggtcgatc 
actgccatt ttgtaattt tgtattgtt atattgtat 
tggtctaat aaagttgat agataaat

    If you use iBeetle-Base, please cite: Dönitz J et al.: Expanded and updated data and a query pipeline for iBeetle-Base,
    Nucleic Acids Res. 2018 Jan 4;46(D1):D831-D835. doi: 10.1093/nar/gkx984.

    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY